Closed bryshalm closed 3 years ago
I think after this, we figured out that we do actually need to explicitly pass in the config file.
So the commands should now read:
exec_annotation -f mapper --config config.yml -o query_nbhd_plass.clean_kofamscan.txt query_nbhd_plass.cdhit.fa
and
exec_annotation -f mapper --config config.yml -o GCA_001508995.1_ASM150899v1_protein_kofamscan.txt GCA_001508995.1_ASM150899v1_protein.faa
In the dib-lab metagenomics rotation project
Annotating amino acid sequences
after
then installing kofamscan needs to be added (as explained by Tessa)
Then checked with . . . . though not necessarily
also if you could explain that kofamscan looks for a config file without have to call for it in the exec_annotation command would be helpful for newbies like me